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At least 1,045 records · Page 58

THE STATISTICS OF MULTI-PLANET SYSTEMS

We describe statistical methods for measuring the exoplanet multiplicity function (the fraction of host stars containing a given number of planets) and inclination distribution from transit and radial-velocity (RV) surveys. The analysis is based on the approximation of separability-that the distribution of planetary parameters in an n-planet system is the product of identical 1-planet distributions. We review the evidence that separability is a valid approximation for exoplanets and conclude that it captures many, but not all, of the known characteristics of multi-planet systems. We show how to relate the observable multiplicity function in surveys with similar host-star populations but different sensitivities. We also show how to correct for geometrical selection effects to derive the multiplicity function from transit surveys if the distribution of relative inclinations is known. Applying these tools to the Kepler transit survey and to RV surveys, we find that (1) the Kepler data alone do not constrain the mean inclination of multi-planet systems; even spherical distributions are allowed by the data but only if a small fraction of host stars contain large planet populations ({approx}> 30); (2) comparing the Kepler and RV surveys shows that the mean inclination of multi-planet systems is less than 5 Degree-Sign ; and (3) the multiplicity function of the Kepler planets is not well determined by the present data.

79 ASTRONOMY AND ASTROPHYSICS↗

Microwave radiances from horizontally finite precipitating clouds containing ice and liquid hydrometeors

Microwave radiances that would be measured from satellite borne radiometers were computed as a function of rainfall rates from horizontally finite precipitating clouds containing ice and liquid hydrometeors capped by a layer of nonprecipitating ice that covers the remainder of the footprint. Ice at the top of the precipitating clouds depresses the brightness temperatures which depend on rainfall rates because the ice hydrometeor concentrations are assumed to be related to the rainfall rates at the cloud base. It is also found that the brightness temperatures of footprints partially covered by precipitation cells are a nonlinear function of the rainfall rate averaged over the footprint. Thus the average brightness temperatures depend on the peak rainfall rates and the size of the precipitating cloud.

Kummerow, C.↗

Heterospin biradicals based on new piperidineoxyl-substituted 3,6-di-tert-butyl-o-benzoquinone

A nucleophilic addition reaction of 4-hydroxy-2,2,6,6-tetramethylpiperidine-1-oxyl (OH-TEMPO) to 3,6-di-tert-butyl-o-benzoquinone was used to obtain a new sterically hindered o-benzoquinone (1) containing 2,2,6,6-tetramethylpiperidineoxyl functional group, which was characterized by IR spectroscopy, mass spectrometry, elemental analysis, and X-ray diffraction. A one-electron reduction of 1 with potassium and thallium is an efficient method for the generation of earlier unknown heterospin biradicals 5a and 5b, respectively, containing nitroxide and o-semiquinone radical centers. Analysis of the hyperfine structure of the ESR spectra of biradicals 5a and 5b in solution showed that they belong to the group of heterospin biradicals with strong (J >> a) and fast exchange interaction between the radical centers.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

The analytic solution for the power series expansion of Heun function

The Heun function generalizes all well-known special functions such as Spheroidal Wave, Lame, Mathieu, and hypergeometric {sub 2}F{sub 1}, {sub 1}F{sub 1} and {sub 0}F{sub 1} functions. Heun functions are applicable to diverse areas such as theory of black holes, lattice systems in statistical mechanics, solution of the Schrödinger equation of quantum mechanics, and addition of three quantum spins. In this paper I will apply three term recurrence formula (Y.S. Choun, (arXiv:1303.0806), 2013) to the power series expansion in closed forms of Heun function (infinite series and polynomial) including all higher terms of A{sub n}’s. Section 3 contains my analysis on applying the power series expansions of Heun function to a recent paper (R.S. Maier, Math. Comp. 33 (2007) 811–843). Due to space restriction final equations for the 192 Heun functions are not included in the paper, but feel free to contact me for the final solutions. Section 4 contains two additional examples using the power series expansions of Heun function. This paper is 3rd out of 10 in series “Special functions and three term recurrence formula (3TRF)”. See Section 5 for all the papers in the series. The previous paper in series deals with three term recurrence formula (3TRF). The next paper in the series describes the integral forms of Heun function and its asymptotic behaviors analytically. -- Highlights: •Power series expansion for infinite series of Heun function using 3 term rec. form. •Power series for polynomial which makes B{sub n} term terminated of Heun function. •Applicable to areas such as the Teukolsky equation in Kerr–Newman–de Sitter geometries.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

1.5 nm fabrication of test patterns for characterization of metrological systems

Any metrology tool is only as good as it is calibrated. The characterization of metrology systems requires test patterns at a scale about ten times smaller than the measured features. The fabrication of patterns with linewidths down to 1.5 nm is described. The test sample was designed in such a way that the distribution of linewidths appears to be random at any location. This pseudorandom test pattern is used to characterize dimensional metrology equipment over its entire dynamic range by extracting the modulation transfer function of the system. The test pattern contains alternating lines of silicon and tungsten silicide, each according to its designed width. As a result, the fabricated test samples were imaged using a transmission electron microscope, a scanning electron microscope, and an atomic force microscope. (C) 2015 American Vacuum Society.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Affordable and accurate large-scale hybrid-functional calculations on GPU-accelerated supercomputers

Performing high accuracy hybrid functional calculations for condensed matter systems containing a large number of atoms is at present computationally very demanding or even out of reach if high quality basis sets are used. We present a highly optimized multiple graphics processing unit implementation of the exact exchange operator which allows one to perform fast hybrid functional density-functional theory (DFT) calculations with systematic basis sets without additional approximations for up to a thousand atoms. With this method hybrid DFT calculations of high quality become accessible on state-of-the-art supercomputers within a time-to-solution that is of the same order of magnitude as traditional semilocal-GGA functionals. The method is implemented in a portable open-source library.

density functional theory↗

Structural and Functional Characterization of a Short-Chain Flavodoxin Associated with a Noncanonical 1,2-Propanediol Utilization Bacterial Microcompartment

Bacterial microcompartments (BMCs) are proteinaceous organelles that encapsulate enzymes involved in CO 2 fixation (carboxysomes). or carbon catabolism (metabolosomes). Metabolosomes share a common core of enzymes and a distinct signature enzyme for substrate degradation that defines the function of the BMC (e,g., propanediol or ethanolamine utilization BMCs, or glycyl-radical enzyme microcompartments). Loci encoding metabolosomes also typically contain genes for proteins that support organelle function, such as regulation, transport of substrate, and cofactor (e.g., vitamin B-12) synthesis and recycling. Flavoproteins are frequently among these ancillary gene products, suggesting that these redox active proteins play an undetermined function in many metabolosomes. Here in this paper, we report the first characterization of a BMC-associated flavodoxin (Fld1C), a small flavoprotein, derived from the noncanonical 1,2-propanediol utilization BMC locus (PDU1C) of Lactobacillus reuteri. The 2.0 angstrom X-ray structure of Fld1C displays the alpha/beta flavodoxin fold, which noncovalently binds a single flavin mononucleotide molecule. Fld1C is a short-chain flavodoxin with redox potentials of -240 +/- 3 mV oxidized/semiquinone and -344 +/- 1 mV semiquinone/hydroquinone versus the standard hydrogen electrode at pH 7.5. It can participate in an electron transfer reaction with a photoreductant to form a stable semiquinone species. Collectively, our structural and functional results suggest that PDU1C BMCs encapsulate Fld1C to store and transfer electrons for the reactivation and/or recycling of the B 12 cofactor utilized by the signature enzyme.

59 BASIC BIOLOGICAL SCIENCES↗

Estimation in nonlinear systems with transport delay.

The problem of estimation of state in nonlinear dynamical systems containing time delays is studied. The plant is specified by a set of nonlinear differential-difference equations. Observations are a nonlinear function of current and/or delayed states. Both contain additive disturbances. The criterion used for the optimal estimates is the integral of the weighted squared error. Using the theory of the calculus of variations, equations are developed for the estimation. They are first expressed in the form of a split boundary value problem, which is then converted to an initial value problem for on-line estimation. The result yields a sequential estimation scheme in which filtered and smoothed estimates are computed in a sequential manner. The applicability of the procedure is demonstrated by a practical example.

Stoller, R. L.↗

DOE EV Data Collection - Vehicle Data

Vehicle data consist of electric vehicle performance data collected directly from the vehicle during standard operations. Data were collected using onboard data loggers that were either installed by the project team or preinstalled by the original equipment manufacturer. Data recorded by the data loggers were made accessible via an online web portal or an application programming interface. Different data loggers were used (HEM, ViriCiti, and Geotab), and the method for each vehicle is defined in the vehicle attributes file. Some systems collected data on a “trip-level” basis, in which each row of a table represents a single trip (the period between a key-on and key-off event), whereas other data were collected on a per-day basis, in which each row represents a single day of operation. Data were collected over a range of data collection periods, depending on the project. Data have been anonymized by removing information or decreasing information resolution as necessary so that fleets are not identifiable. Due to the wide range of vehicle types represented and variation in data collection, data parameters and frequencies differ between vehicles and fleets The **Performance Data Daily/Trip Data Dictionaries** contain definitions for each available parameter associated with a vehicle’s operations, aggregated at either a daily or trip level. The parameters available will vary from vehicle to vehicle, but every possible parameter will be defined. The **Vehicle Attributes Data Dictionary** contains definitions for each available parameter associated with a vehicle’s physical and functional attributes and fleet context. The **Vehicle Attributes** table contains specific vehicle characteristics, coded to an anonymous Vehicle ID. This Vehicle ID can be used as a key between vehicle data and vehicle attribute tables. The **Vehicle Data** tables contain the data from each vehicle’s operations, aggregated at either a daily or trip level, coded to an anonymous Vehicle ID. This Vehicle ID can be used as a key between vehicle data and vehicle attribute tables. Data is being uploaded quarterly through 2023 and subject to change until the conclusion of the project.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE EV Data Collection - Charging Data

Charging data are collected from one of three sources, each with varying levels of additional information. These sources, in approximate order from most to least additional information, are: • The electric vehicle supply equipment (charger) • Onboard the vehicle itself • From a utility submeter. Many chargers provide software that allows for the collection and reporting of charging session data. If unavailable, data may be recorded by the charging vehicle’s onboard systems. If neither of these options is available, data can be acquired from utility submeters that simply track the energy flowing to one or more chargers. Data collected directly from the electric vehicle supply equipment (EVSE) are typically the most accurate and highest frequency. However, it is not always possible to discern which exact vehicle is being charged during any one session. EVSE-side data can be identified where a single charger ID but a range of vehicle IDs are present (e.g., CH001, EV001-EV005). Data collected from the vehicle’s onboard systems usually does not provide information on which exact charger is being used. Vehicle-side data can be identified where a single Vehicle ID but a range of Charger IDs are present (e.g., EV001, CH001-CH005). Data collected from utility submeters provide no information on which specific vehicle is charging or which specific charger is in use. Submeter data can be identified where multiple Vehicle IDs and multiple Charger IDs are present, but only a single Fleet ID is present (e.g., EV001-EV005, CH001-CH005, Fleet01). The **Charge Data Daily/Session Dictionaries** contains definitions for each available parameter collected as part of an individual charging session, aggregated at either a daily or session level. The parameters available will vary between vehicles and chargers. The **Charger Attributes** table contains specific charger characteristics, coded to at least one anonymous Charger ID and linked to either a single or a range of Vehicle IDs. Vehicle ID can be used as a key between charging data and vehicle attribute tables. The **Charger Attributes Data Dictionary** contains definitions for each available parameter collected on the physical and operational characteristics of the charging hardware itself. The **Vehicle Attributes Data Dictionary** contains definitions for each available parameter associated with a vehicle’s physical and functional attributes and fleet context. The **Vehicle Attributes** table contains specific vehicle characteristics, coded to an anonymous Vehicle ID. This Vehicle ID can be used as a key between vehicle data and vehicle attribute tables, and in cases where charging data are supplied, links a vehicle with the charger(s) that supplied it power. The **Charging Data** tables contain the data from each charger’s operations, coded to at least one anonymous Charger ID and linked to either a single or a range of Vehicle IDs. Vehicle ID can be used as a key between charging data and vehicle attribute tables. Data is being uploaded quarterly through 2023 and subject to change until the conclusion of the project.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Physiological roles of an Acinetobacter -specific σ factor

ABSTRACT The Gram-negative pathogen Acinetobacter baumannii is considered an “urgent threat” to human health due to its propensity to become antibiotic resistant. Understanding the distinct regulatory paradigms used by A. baumannii to mitigate cellular stresses may uncover new therapeutic targets. Many γ-proteobacteria use the extracytoplasmic function (ECF) σ factor, RpoE, to invoke envelope homeostasis networks in response to stress. Acinetobacter species contain the poorly characterized ECF “SigAb”; however, it is unclear if SigAb has the same physiological role as RpoE. Here, we show that SigAb is a metal stress-responsive ECF that appears unique to Acinetobacter species and distinct from RpoE-like ECFs. We combine promoter mutagenesis, motif scanning, and chromatin immunoprecipitation-sequencing (ChIP-seq) to define the direct SigAb regulon, which consists of genes encoding SigAb itself, the stringent response mediator, RelA, and the uncharacterized small RNA, “SabS.” However, RNA-seq of strains overexpressing SigAb revealed a large, indirect regulon containing hundreds of genes. Metal resistance genes are key elements of the indirect regulon, as CRISPRi knockdown of sigAb or sabS resulted in increased copper sensitivity and excess copper-induced SigAb-dependent transcription. Furthermore, we found that two uncharacterized genes in the sigAb operon, “ aabA ” and “ aabB ,” have anti-SigAb activity. Finally, employing a targeted Tn-seq approach that uses CRISPR-associated transposons, we show that sigAb , aabA , and aabB are important for fitness even during optimal growth conditions. Our work reveals new physiological roles for SigAb and SabS, provides a novel approach for assessing gene fitness, and highlights the distinct regulatory architecture of A. baumannii . IMPORTANCE Acinetobacter baumannii is a hospital-acquired pathogen, and many strains are resistant to multiple antibiotics. Understanding how A. baumannii senses and responds to stress may uncover novel routes to treat infections. Here, we examine how the Acinetobacter -specific transcription factor, SigAb, mitigates stress. We find that SigAb directly regulates only a small number of genes, but indirectly controls hundreds of genes that have substantial impacts on cell physiology. We show that SigAb is required for maximal growth, even during optimal conditions, and is acutely required during growth in the presence of elevated copper. Given that copper toxicity plays roles in pathogenesis and on copper-containing surfaces in hospitals, we speculate that SigAb function may be important in clinically relevant contexts.

Bacon, Emily E. (ORCID:0000000180907689)↗

Three-dimensional structure of the 3'X-tail of hepatitis C virus RNA in monomeric and dimeric states

The 3'X domain is a 98-nt region located at the 3' end of hepatitis C virus genomic RNA that plays essential functions in the viral life cycle. It contains an absolutely conserved, 16-base palindromic sequence that promotes viral RNA dimerization, overlapped with a 7-nt tract implicated in a distal contact with a nearby functional sequence. Using small angle X-ray scattering measurements combined with model building guided by NMR spectroscopy, we have studied the stoichiometry, structure, and flexibility of domain 3'X and two smaller subdomain sequences as a function of ionic strength, and obtained a three-dimensional view of the full-length domain in its monomeric and dimeric states. In the monomeric form, the 3'X domain adopted an elongated conformation containing two SL1' and SL2' double-helical stems stabilized by coaxial stacking. This structure was significantly less flexible than that of isolated subdomain SL2' monomers. At higher ionic strength, the 3'X scattering envelope nearly doubled its size, reflecting the formation of extended homodimers containing an antiparallel SL2' duplex flanked by coaxially stacked SL1' helices. Formation of these dimers could initialize and/or regulate the packaging of viral RNA genomes into virions.

Biochemistry & Molecular Biology 3′X domain↗

The Effect of Surface Terminations on the Initial Stages of TiO 2 Deposition on Functionalized Silicon

As atomic layer deposition (ALD) emerges as a method to fabricate architectures with atomic precision, emphasis is placed on understanding surface reactions and nucleation mechanisms. ALD of titanium dioxide with TiCl 4 and water has been used to investigate deposition processes in general, but the effect of surface termination on the initial TiO 2 nucleation lacks needed mechanistic insights. Here, this work examines the adsorption of TiCl 4 on Cl–, H–, and HO– terminated Si(100) and Si(111) surfaces to elucidate the general role of different surface structures and defect types in manipulating surface reactivity of growth and non-growth substrates. The surface sites and their role in the initial stages of deposition are examined by X-ray photoelectron spectroscopy (XPS) and atomic force microscopy (AFM). Density functional theory (DFT) computations of the local functionalized silicon surfaces suggest oxygen-containing defects are primary drivers of selectivity loss on these surfaces.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Acid-Functionalized Mesoporous Carbon: An Efficient Support for Ruthenium-Catalyzed γ-Valerolactone Production

The hydrogenation of levulinic acid has been studied using Ru supported on ordered mesoporous carbons (OMCs) prepared by soft-templating. P- and S-containing acid groups were introduced by postsynthetic functionalization before the addition of 1% Ru by incipient wetness impregnation. These functionalities and the reaction conditions mediate the activity and selectivity of the levulinic acid hydrogenation. The presence of Scontaining groups (Ru/OMC-S and Ru/OMC-P/S) deactivates the Ru catalysts strongly, whereas the presence of P-containing groups (Ru/OMC-P) enhances the activity compared to that of pristine Ru/OMC. Under mild conditions (70 8C and 7 bar H2) the catalyst shows high selectivity to g-valerolactone (GVL; >95%) and high stability on recycling. However, under more severe conditions (200 8C and pH2=40 bar) Ru/OMC-P is particularly able to promote GVL ring-opening and the consecutive hydrogenation to pentanoic acid.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Warming enhances old organic carbon decomposition through altering functional microbial communities

Soil organic matter (SOM) stocks contain nearly three times as much carbon (C) as the atmosphere and changes in soil C stocks may have a major impact on future atmospheric carbon dioxide concentrations and climate. Over the past two decades, much research has been devoted to examining the influence of warming on SOM decomposition in topsoil. Most SOM, however, is old and stored in subsoil. The fate of subsoil SOM under future warming remains highly uncertain. Here, by combining a long-term field warming experiment and a meta-analysis study, we showed that warming significantly increased SOM decomposition in subsoil. We also showed that a decade of warming promoted decomposition of subsoil SOM with turnover times of decades to millennia in a tall grass prairie and this effect was largely associated with shifts in the functional gene structure of microbial communities. By coupling stable isotope probing with metagenomics, we found that microbial communities in warmed soils possessed a higher relative abundance of key functional genes involved in the degradation of organic materials with varying recalcitrance than those in control soils. These findings suggest warming may considerably alter the stability of the vast pool of old SOM in subsoil, contributing to the long-term positive feedback between the C cycle and climate.

54 ENVIRONMENTAL SCIENCES↗

Altered nuclear envelope structure and proteasome function of micronuclei

Micronuclei are extra-nuclear bodies containing whole chromosomes that were not incorporated into the nucleus after cell division or damaged chromosome fragments. Even though the link between micronuclei and DNA damage is described for a long time, little is known about the functional organization of micronuclei and their contribution to tumorigenesis. We showed fusions between micronuclear membranes and lysosomes by electron microscopy and linked lysosome function to DNA damage levels in micronuclei. In addition, micronuclei drastically differ from primary nuclei in nuclear envelope composition, with a significant increase in the relative amount of nuclear envelope proteins LBR and emerin and a decrease in nuclear pore proteins. Strikingly, micronuclei lack active proteasomes, as the processing subunits and other factors of the ubiquitin proteasome system. Moreover, micronuclear chromatin shows a higher degree of compaction as compared to primary nuclei. The specific aberrations identified in micronuclei and the potential functional consequences of these defects may contribute to the role of micronuclei in catastrophic genomic rearrangements.

60 APPLIED LIFE SCIENCES↗

Stretchable electronic systems with containment chambers

The present invention provides electronic systems, including device arrays, comprising functional device(s) and/or device component(s) at least partially enclosed via one or more containment chambers, such that the device(s) and/or device component(s) are at least partially, and optionally entirely, immersed in a containment fluid. Useful containment fluids for use in containment chambers of electronic devices of the invention include lubricants, electrolytes and/or electronically resistive fluids. In some embodiments, for example, electronic systems of the invention comprise one or more electronic devices and/or device components provided in free-standing and/or tethered configurations that decouple forces originating upon deformation, stretching or compression of a supporting substrate from the free standing or tethered device or device component.

Rogers, John A.↗

Molecular Hydrogen Yields from the Alpha Self-Radiolysis of Nitric Acid Solutions Containing Plutonium or Americium

The yield of molecular hydrogen, as a function of nitric acid concentration, from the a-radiolysis of aerated nitric acid and sulfuric acid mixtures containing plutonium or americium has been investigated. Comparison of experimental measurements with predictions of a Monte Carlo radiation track chemistry model shows that, in addition to scavenging of the hydrated electron, its precursor, and the hydrogen atom, the quenching of excited state water is important in controlling the yield of hydrogen. In addition, increases in solution acidity cause a significant change in the track reactions that can be explained as resulting from scavenging of e aq - by H aq + to form H • . While plutonium has been shown to be an effective scavenger of precursors of molecular hydrogen below 0.1 mol dm-3 nitrate, previously reported effects of plutonium on G(H 2 ) a between 1 and 10 mol dm -3 nitric acid were not reproduced. Modelling results suggest that plutonium is unlikely to effectively compete with nitrate ions in scavenging the precursors of molecular hydrogen at higher nitric acid concentrations and this was confirmed by comparing hydrogen yields from plutonium solutions with those from americium. Finally, comparison between the radionuclide, ion accelerator experiments and model predictions leads to the conclusion that the high dose rate of accelerator studies does not significantly affect the measured hydrogen yield. These reactions provide insight into the important processes for liquors common in the reprocessing of spent nuclear fuel and the storage of highly radioactive liquid waste prior to vitrification.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗